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DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm

DNA 6mA modification, an important newly discovered epigenetic mark, plays a crucial role in organisms and has been attracting more and more attention in recent years. The soybean is economically the most important bean in the world, providing vegetable protein for millions of people. However, the d...

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Autores principales: Yuan, De-Hui, Xing, Jian-Feng, Luan, Mei-Wei, Ji, Kai-Kai, Guo, Jun, Xie, Shang-Qian, Zhang, Yuan-Ming
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7398112/
https://www.ncbi.nlm.nih.gov/pubmed/32849778
http://dx.doi.org/10.3389/fgene.2020.00736
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author Yuan, De-Hui
Xing, Jian-Feng
Luan, Mei-Wei
Ji, Kai-Kai
Guo, Jun
Xie, Shang-Qian
Zhang, Yuan-Ming
author_facet Yuan, De-Hui
Xing, Jian-Feng
Luan, Mei-Wei
Ji, Kai-Kai
Guo, Jun
Xie, Shang-Qian
Zhang, Yuan-Ming
author_sort Yuan, De-Hui
collection PubMed
description DNA 6mA modification, an important newly discovered epigenetic mark, plays a crucial role in organisms and has been attracting more and more attention in recent years. The soybean is economically the most important bean in the world, providing vegetable protein for millions of people. However, the distribution pattern and function of 6mA in soybean are still unknown. In this study, we decoded 6mA modification to single-nucleotide resolution in wild and cultivated soybeans, and compared the 6mA differences between cytoplasmic and nuclear genomes and between wild and cultivated soybeans. The motif of 6mA in the nuclear genome was conserved across the two kinds of soybeans, and ANHGA was the most dominant motif in wild and cultivated soybeans. Genes with 6mA modification in the nucleus had higher expression than those without modification. Interestingly, 6mA distribution patterns in cytoplasm for each soybean were significantly different from those in nucleus, which was reported for the first time in soybean. Our research provides a new insight in the deep analysis of cytoplasmic genomic DNA modification in plants.
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spelling pubmed-73981122020-08-25 DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm Yuan, De-Hui Xing, Jian-Feng Luan, Mei-Wei Ji, Kai-Kai Guo, Jun Xie, Shang-Qian Zhang, Yuan-Ming Front Genet Genetics DNA 6mA modification, an important newly discovered epigenetic mark, plays a crucial role in organisms and has been attracting more and more attention in recent years. The soybean is economically the most important bean in the world, providing vegetable protein for millions of people. However, the distribution pattern and function of 6mA in soybean are still unknown. In this study, we decoded 6mA modification to single-nucleotide resolution in wild and cultivated soybeans, and compared the 6mA differences between cytoplasmic and nuclear genomes and between wild and cultivated soybeans. The motif of 6mA in the nuclear genome was conserved across the two kinds of soybeans, and ANHGA was the most dominant motif in wild and cultivated soybeans. Genes with 6mA modification in the nucleus had higher expression than those without modification. Interestingly, 6mA distribution patterns in cytoplasm for each soybean were significantly different from those in nucleus, which was reported for the first time in soybean. Our research provides a new insight in the deep analysis of cytoplasmic genomic DNA modification in plants. Frontiers Media S.A. 2020-07-27 /pmc/articles/PMC7398112/ /pubmed/32849778 http://dx.doi.org/10.3389/fgene.2020.00736 Text en Copyright © 2020 Yuan, Xing, Luan, Ji, Guo, Xie and Zhang. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Yuan, De-Hui
Xing, Jian-Feng
Luan, Mei-Wei
Ji, Kai-Kai
Guo, Jun
Xie, Shang-Qian
Zhang, Yuan-Ming
DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title_full DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title_fullStr DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title_full_unstemmed DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title_short DNA N6-Methyladenine Modification in Wild and Cultivated Soybeans Reveals Different Patterns in Nucleus and Cytoplasm
title_sort dna n6-methyladenine modification in wild and cultivated soybeans reveals different patterns in nucleus and cytoplasm
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7398112/
https://www.ncbi.nlm.nih.gov/pubmed/32849778
http://dx.doi.org/10.3389/fgene.2020.00736
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